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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tcgagaaaaaaaagcatcattttggtatacctccattcagtataacgttgcgttgtttgaattgttgaagtataacaccgctatcttcactattttgcagTTTCAGGCGCTTCGGGAAATGGTTCATACTAACCCACAAATATTGCAG

Basic information

species Oryza sativa
transcript LOC_Os02g08300.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g08300.2 (Oryza sativa), 3'ss of exon 8
lower sequence: GRMZM2G143462_T06 (Zea mays), 3'ss of exon 8
tcgagaaaaaaaagcatcattttggtatacctccattcagtataacgttgcgttgtttgaattgttgaagtataacaccgctatcttc---actattttgcagTTTCAGGCGCTTCGGGAAATGGTTCATACTAACCCACAAATATTGCAG
  |     ||  | | |   ||||| ||    |      | || || | |  ||      | ||||  | |     |    || |||    | ||||||||||||||| ||  || |||||||||| ||||| || |||||||| ||||||
--gctccgaatcaacttatatttgggat-tggcggggtgggattacatcgatttaacctcactgttctaattatgaattaatagcttatcaattattttgcagTTTCAAGCAGTTAGGGAAATGGTCCATACAAATCCACAAATTTTGCAG
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|88976735|gb|CI257507.1|CI257507
EST:     TTCCTTAGACATAACCAACAG                         TTTCAGGCGCTTCGGGAAATGGTTCATACTAACCCACAAATATTGCAG
genomic: TTCCTTAGACATAACCAACAGgttgtcatcc ... tattttgcagTTTCAGGCGCTTCGGGAAATGGTTCATACTAACCCACAAATATTGCAG
EST: gi|66923978|gb|CX110826.1|CX110826
EST:     GAGGTGGTGCTGGTGGTGGAACACTTGAGTTCCTTAGACATAACCAACAG                         TTTCAGGCGCTTCGGGAAATGGTTCATACTAACCCACAAATATTGCAG
genomic: GAGGTGGTGCTGGTGGTGGAACACTTGAGTTCCTTAGACATAACCAACAGgttgtcatcc ... tattttgcagTTTCAGGCGCTTCGGGAAATGGTTCATACTAACCCACAAATATTGCAG
EST: gi|58676620|gb|CK065307.1|CK065307
EST:     GAGGTGGTGCTGGTGGTGGAACACTTGAGTTCCTTAGACATAACCAACAG                         TTTCAGGCGCTTCGGGAAATGGTTCATACTAACCCACAAATATTGCAG
genomic: GAGGTGGTGCTGGTGGTGGAACACTTGAGTTCCTTAGACATAACCAACAGgttgtcatcc ... tattttgcagTTTCAGGCGCTTCGGGAAATGGTTCATACTAACCCACAAATATTGCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgttgcgttgtttgaattgttgaagtataacaccgctatcttcactattttgcagTTTCAGGCGCTTCGGGAAATGGTTCATACTAACCCACAAATATTGCAG
                        gtataac  putative branch site (score: 3)
                                      tcttcact  putative PPT
          tttgaatt  TA-rich tract